diff --git a/.github/workflows/phantompeakqualtools.yml b/.github/workflows/phantompeakqualtools.yml
new file mode 100644
index 00000000..3663b6ef
--- /dev/null
+++ b/.github/workflows/phantompeakqualtools.yml
@@ -0,0 +1,40 @@
+name: phantompeakqualtools
+on:
+  push:
+    paths:
+      - software/phantompeakqualtools/**
+      - .github/workflows/phantompeakqualtools.yml
+      - tests/software/phantompeakqualtools/**
+  pull_request:
+    paths:
+      - software/phantompeakqualtools/**
+      - .github/workflows/phantompeakqualtools.yml
+      - tests/software/phantompeakqualtools/**
+
+jobs:
+  ci_test:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        nxf_version: [20.07.1, ""]
+    env:
+      NXF_ANSI_LOG: false
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: Install Nextflow
+        env:
+          NXF_VER: ${{ matrix.nxf_version }}
+        run: |
+          wget -qO- get.nextflow.io | bash
+          sudo mv nextflow /usr/local/bin/
+
+      - name: Set up Python
+        uses: actions/setup-python@v2
+        with:
+          python-version: "3.x"
+      - name: Install dependencies
+        run: python -m pip install --upgrade pip pytest-workflow
+
+      # Test the module
+      - run: pytest --tag phantompeakqualtools --symlink --wt 2
diff --git a/tests/software/phantompeakqualtools/test.yml b/tests/software/phantompeakqualtools/test.yml
index d1d1dd05..e877ac5c 100644
--- a/tests/software/phantompeakqualtools/test.yml
+++ b/tests/software/phantompeakqualtools/test.yml
@@ -3,6 +3,9 @@
   tags:
     - phantompeakqualtools
   files:
-    - path: output/phantompeakqualtools/test.single_end.sorted.bam.out
-    - path: output/phantompeakqualtools/test.single_end.sorted.bam.pdf
-    - path: output/phantompeakqualtools/test.single_end.sorted.bam.Rdata
+    - path: output/phantompeakqualtools/test.spp.out
+      md5sum: c18220e8082e695995edecc99235ec85
+    - path: output/phantompeakqualtools/test.spp.pdf
+      md5sum: 098765dccaf0384c3988ce3cdbd64ec4 
+    - path: output/phantompeakqualtools/test.spp.Rdata
+      md5sum: 751283cd3aa02efef2ab0444a9cfb301 
\ No newline at end of file